8SWJ | pdb_00008swj

Co-crystal structure of 53BP1 tandem Tudor domains in complex with UNC8531

• PDB DOI: https://doi.org/10.2210/pdb8SWJ/pdb

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-05-18 Released: 2023-08-02 
• Deposition Author(s): Zeng, H., Dong, A., Shell, D.J., Foley, C., Pearce, K.H., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)
• Funding Organization(s): Other private

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.262 (Depositor), 0.262 (DCC) 
• R-Value Work: 
  0.218 (Depositor) 
• R-Value Observed: 
  0.220 (Depositor) 

Starting Model: experimental

Literature

Co-crystal structure of 53BP1 tandem Tudor domains in complex with UNC8531

Zeng, H., Dong, A., Shell, D.J., Foley, C., Pearce, K.H., Arrowsmith, C.H., Edwards, A.M., Halabelian, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 58.59 kDa 
• Atom Count: 4,291 
• Modeled Residue Count: 494 
• Deposited Residue Count: 500 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TP53-binding protein 1	A, B, C, D	125	Homo sapiens	Mutation(s): 0  Gene Names: TP53BP1
UniProt & NIH Common Fund Data Resources
Find proteins for Q12888 (Homo sapiens) Explore Q12888  Go to UniProtKB:  Q12888
PHAROS:  Q12888 GTEx:  ENSG00000067369

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
WWQ (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], I [auth D]	(3S)-N-(4'-carbamoyl[1,1'-biphenyl]-3-yl)-1-[4-(4-methylpiperazin-1-yl)pyridine-2-carbonyl]piperidine-3-carboxamide C30 H34 N6 O3 KDJWESNUVQMZGH-DEOSSOPVSA-N
UNX	H [auth C]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.262 (Depositor), 0.262 (DCC) 
• R-Value Work:  0.218 (Depositor) 
• R-Value Observed: 0.220 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m38swj

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.159	α = 90
b = 55.902	β = 105.37
c = 78.522	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-08-02 
Deposition Author(s): Zeng, H., Dong, A., Shell, D.J., Foley, C., Pearce, K.H., Arrowsmith, C.H., Edwards, A.M., Halabelian, L., Structural Genomics Consortium (SGC)

---

Funding Organization	Location	Grant Number
Other private		--

Revision History  

• Version 1.0: 2023-08-02
  Type: Initial release
  
• Version 1.1: 2024-05-22
  Changes: Data collection